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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3l67FMNXenobiotic reductase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3l67FMNXenobiotic reductase/1.000
4uthFMNXenobiotic reductase/0.748
3l5lFMNXenobiotic reductase/0.735
2h8xFMNXenA/0.654
3n14FMNXenobiotic reductase/0.649
1z44FMNNADPH dehydrogenase/0.547
1icpFMN12-oxophytodienoate reductase 11.3.1.420.515
1vyrFMNPentaerythritol tetranitrate reductase/0.514
3p74FMNPentaerythritol tetranitrate reductase/0.508
4rvfTYDD-mycarose 3-C-methyltransferase/0.499
1tllFMNNitric oxide synthase, brain1.14.13.390.491
3hgoFMN12-oxophytodienoate reductase 31.3.1.420.491
1icqFMN12-oxophytodienoate reductase 11.3.1.420.490
3p67FMNPentaerythritol tetranitrate reductase/0.481
1ld7U66Protein farnesyltransferase subunit beta2.5.1.580.480
3q7fED2Uncharacterized protein/0.480
3hgrFMN12-oxophytodienoate reductase 11.3.1.420.478
4utlFNRXenobiotic reductase/0.478
3p8jFMNPentaerythritol tetranitrate reductase/0.476
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.476
1icsFMN12-oxophytodienoate reductase 11.3.1.420.475
3af1GDPPantothenate kinase2.7.1.330.472
5fd8A5APutative carboxypeptidase yocD/0.472
2hs8FMN12-oxophytodienoate reductase 31.3.1.420.471
1s63778Protein farnesyltransferase subunit beta2.5.1.580.469
1sa5BMVProtein farnesyltransferase subunit beta2.5.1.580.469
3aezGDPPantothenate kinase2.7.1.330.469
3f03FMNPentaerythritol tetranitrate reductase/0.468
3p62FMNPentaerythritol tetranitrate reductase/0.468
4dyn0MRNucleoprotein/0.468
3n19FNRXenobiotic reductase/0.467
2gesCOKPantothenate kinase2.7.1.330.466
3pz43PZProtein farnesyltransferase subunit beta2.5.1.580.466
4utkFNRXenobiotic reductase/0.466
1jcq739Protein farnesyltransferase subunit beta2.5.1.580.464
2g8yNADHydroxycarboxylate dehydrogenase B/0.464
2vkvTDCTetracycline repressor protein class D/0.463
3p8iFMNPentaerythritol tetranitrate reductase/0.463
3ksqZ96Protein farnesyltransferase subunit beta2.5.1.580.462
2jgbMGTEukaryotic translation initiation factor 4E type 2/0.461
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.461
4rnvFMNNADPH dehydrogenase 11.6.99.10.461
4b722FBBeta-secretase 13.4.23.460.460
4q71FADBifunctional protein PutA/0.460
1q20PLOSulfotransferase family cytosolic 2B member 12.8.2.20.459
2eixFADNADH-cytochrome b5 reductase/0.458
1h51FMNPentaerythritol tetranitrate reductase/0.457
1h63FMNPentaerythritol tetranitrate reductase/0.455
2geuCOKPantothenate kinase2.7.1.330.455
2jfgUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.455
3hgsFMN12-oxophytodienoate reductase 31.3.1.420.455
4dd8BATDisintegrin and metalloproteinase domain-containing protein 83.4.240.455
4tmbFMNOld yellow enzyme/0.455
1n95FTHProtein farnesyltransferase subunit beta2.5.1.580.454
2r2lPB9Protein farnesyltransferase subunit beta2.5.1.580.454
4dya0MFNucleoprotein/0.454
1amoFMNNADPH--cytochrome P450 reductase/0.453
3to3ATPPetrobactin biosynthesis protein AsbB/0.453
4rnuFMNNADPH dehydrogenase 11.6.99.10.453
2xviFADPutative flavin-containing monooxygenase/0.452
3af0GDPPantothenate kinase2.7.1.330.452
4b78KGGBeta-secretase 13.4.23.460.452
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.452
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.452
4h3i10VBeta-secretase 13.4.23.460.452
2xpwOTCTetracycline repressor protein class D/0.451
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.451
4bftZVTPantothenate kinase2.7.1.330.450
1h50FMNPentaerythritol tetranitrate reductase/0.449
2gevCOKPantothenate kinase2.7.1.330.449
2h6iCYS_VAL_LEU_SER_GERProtein farnesyltransferase subunit beta2.5.1.580.449
3atzFMNProstaglandin F2a synthase/0.449
3f6sFMNFlavodoxin/0.449
4rnwFMNNADPH dehydrogenase 11.6.99.10.449
2f3rG5PGuanylate kinase2.7.4.80.448
4h1e10JBeta-secretase 13.4.23.460.448
4yfy0FXVioF/0.448
3p82FMNPentaerythritol tetranitrate reductase/0.447
4dyb0MHNucleoprotein/0.447
4frkDWDBeta-secretase 13.4.23.460.447
4qtuSAM18S rRNA (guanine(1575)-N(7))-methyltransferase/0.447
1ld8U49Protein farnesyltransferase subunit beta2.5.1.580.446
1w19T5P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.446
3qe2FMNNADPH--cytochrome P450 reductase/0.446
4acxS8ZBeta-secretase 13.4.23.460.446
4azy7F3Beta-secretase 13.4.23.460.445
1s4pGDPGlycolipid 2-alpha-mannosyltransferase/0.444
1xe65FPPlasmepsin-23.4.23.390.444
2getCOKPantothenate kinase2.7.1.330.444
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.444
4eb5PLPCysteine desulfurase IscS 2/0.444
3gw9VNILanosterol 14-alpha-demethylase/0.443
4acuQN7Beta-secretase 13.4.23.460.443
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.443
4fkkBESAminopeptidase N3.4.11.20.443
2ixkTDOdTDP-4-dehydrorhamnose 3,5-epimerase5.1.3.130.442
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.442
3gjwGJWPoly [ADP-ribose] polymerase 12.4.2.300.442
3muoZPRProlyl endopeptidase/0.442
1s4oGDPGlycolipid 2-alpha-mannosyltransferase/0.441
2hs6FMN12-oxophytodienoate reductase 31.3.1.420.441
2vetUMPThymidylate synthase/0.441
3af4GCPPantothenate kinase2.7.1.330.441
3rsv3RSBeta-secretase 13.4.23.460.441
3s5wFADL-ornithine N(5)-monooxygenase/0.441
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.441
4b63FADL-ornithine N(5)-monooxygenase/0.441
4c13UMLUDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase/0.441
1pqc444Oxysterols receptor LXR-beta/0.440
1uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.440
1x1aSAMC-20 methyltransferase/0.440
2jf0HBPAcetylcholinesterase3.1.1.70.440
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.440
3pm1ETHTH-type transcriptional regulator QacR/0.440